Rama Dey-Rao
Research Assistant Professor at State University of New York at Buffalo - School of Medicine & Biomedical Sciences- Claim this Profile
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English Native or bilingual proficiency
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Sanskrit Elementary proficiency
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Punjabi Elementary proficiency
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Hindi Native or bilingual proficiency
Topline Score
Bio
Credentials
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Advanced BLAST, PUBMED, The NCBI Discovery Workshops, NIH
-Jan, 2012- Oct, 2024 -
Ingenuity Pathway Analysis Software, Qiagen
-Jan, 2011- Oct, 2024 -
Proteomics Informatics Course
Institute of Systems Biology, SeattleMay, 2007- Oct, 2024 -
Metacore (Biological networks) from GeneGO Inc.
-Jan, 2007- Oct, 2024 -
Q-ToF (API-US and Premier) mass spectrometer by Waters Corp. (October)
-Jan, 2007- Oct, 2024 -
MALDI MX mass spectrometer by Waters Corp.
-Jan, 2005- Oct, 2024 -
Scaffold, Peaks, Mascot, PLGS search engines and related software
-Jan, 2005- Oct, 2024 -
Applied Biosystems: BioCAD (HPLC) workstation
-Jan, 2001- Oct, 2024 -
2008 Bioinformatics, Canadian Bioinformatics Workshop (Ontario Institute of Cancer Research) “Interpreting gene-lists from –omics studies” (Toronto, July 9-10) 2008
Canadian Bioinformatics Workshop (Ontario Institute of Cancer Research
Experience
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Research Assistant Professor
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Oct 2017 - Present
In my current position in the department of microbiology, I lead the team in the use of bioinformatics tools to predict structures within Human papillomavirus (HPV) E1 helicase that can inhibit DNA replication. Our ongoing research program is to identify protein interaction pockets (PIPs) on the HPV11 E1 protein required to recruit cellular DNA replication proteins to replicate viral genomes, as potential targets for broad-range HPV antiviral agents. We will use the plethora of naturally occurring HPV type variants to identify highly conserved predicted PIPs, and use site-directed mutagenesis and a high throughput HPV DNA replication assay to ascertain which PIPs are essential for DNA replication and cellular replication protein interactions. The long-term goal is to identify protein-protein interaction targets for antiviral therapy. We are currently engaged in identification of small molecules (drugs), through a docking program that are predicted to bind to this initial binding pocket defined by us that would potentially inhibit E1-polymerase alpha interaction to inhibit viral DNA replication. Our work is selected for participation in the NSF I-Corps Site program at UB and our novel bioinformatics-based pipeline is being scrutinized by the Empire Discovery Institute initiative in UB, for the potential to lead to the discovery and development of novel, highly differentiated new therapeutics in viral diseases. I have presented our innovative research to the faculty at the microbiology department and am invited to present my work at the ID Research Conference in JSMBS, UB. Show less
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Senior Scientist
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Dec 2010 - Oct 2017
Our paradigm shifting research in diseases such as Pemphigus vulgaris, vitiligo, cutaneous lupus, and androgenetic alopecia won several national and international awards. Tissue damage in pemphigus vulgaris (a prototypical autoimmune disease of interest in our laboratory) is mediated by autoantibodies that target primarily the desmosomal proteins Dsg3 and 1. I established the standard operating procedure in the laboratory for chromatographic purification of overexpressed Desmoglein proteins (>90% purity) using baculovirus expression vectors in insect cells. These proteins were used in long-term biochemical studies to elucidate disease mechanisms in pemphigus vulgaris. My long-term goals were to use the information from the genomic studies to: 1) better identify individuals at risk, 2) better predict the clinical course of disease, and 3) better determine therapeutic responses in patient subgroups. My research provided deeper insights into disease mechanisms and impacts the clinical management of patients at several levels to usher in a new era of personalized medicine. Show less
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University at Buffalo (UB)
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United States
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Entertainment Providers
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1 - 100 Employee
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Clinical Assistant Professor/Graduate Faculty
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Oct 2009 - Present
Department of Biotechnical and Clinical Laboratory Sciences: Introduction to Microbial Genome Annotation (Graduate and Undergraduate) Fall semesters 2011 – present. Elective course MT447/547 LECKOU for BS and MS Biotechnology students. This course introduces students to the Integrated Microbial Genomics Annotation Collaboration Toolkit (IMG-ACT). IMG-ACT is maintained by the Joint Genome Institute of the US Department of Energy and made available free of charge for use in the basics of genome annotation. Lectures demonstrate the various modules of the toolkit and then students perform annotations of individual genes and biochemical pathways using the genome of Kytococcus sedentarius as a model. The course consists of 1 hour of lecture per week and 2 hours of recitation time for supervised use of modules for a total of 3 contact hours (2 credits) per week. This course was developed and implemented within the department with other faculty members. Show less
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Roswell Park Cancer Institute
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United States
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Medical Practices
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1 - 100 Employee
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Assistant Director
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2005 - Dec 2011
I was in-charge of setting up and running The Proteomics Resources Core facility. I had three technicians under my care and we all worked good collegiality to execute proteomics-related experiments as well as complex analyses via MALDI-ToF MS and Q-TOF LC MS/MS. I have had hands-on training in the operation of complex mass spectrometers with extensive knowledge on linked software. I trained several students under our care and participated in several seminars and meetings. I was in-charge of setting up and running The Proteomics Resources Core facility. I had three technicians under my care and we all worked good collegiality to execute proteomics-related experiments as well as complex analyses via MALDI-ToF MS and Q-TOF LC MS/MS. I have had hands-on training in the operation of complex mass spectrometers with extensive knowledge on linked software. I trained several students under our care and participated in several seminars and meetings.
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Education
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1988 - 1989
DKFZ German Cancer Research Center
Post Doctoral Training, Cell Biology, Electron Microscopy, Immunolog -
1982 - 1987
University of Calcutta
PhD, Cell Biology/Botany
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